1PRM

TWO BINDING ORIENTATIONS FOR PEPTIDES TO SRC SH3 DOMAIN: DEVELOPMENT OF A GENERAL MODEL FOR SH3-LIGAND INTERACTIONS


Experimental Data Snapshot

  • Method: SOLUTION NMR
  • Conformers Submitted: 

wwPDB Validation 3D Report Full Report


This is version 1.2 of the entry. See complete history

Literature

Two binding orientations for peptides to the Src SH3 domain: development of a general model for SH3-ligand interactions.

Feng, S.Chen, J.K.Yu, H.Simon, J.A.Schreiber, S.L.

(1994) Science 266: 1241-1247

  • Primary Citation of Related Structures:  1PRL, 1RLP, 1RLQ

  • PubMed Abstract: 
  • Solution structures of two Src homology 3 (SH3) domain-ligand complexes have been determined by nuclear magnetic resonance. Each complex consists of the SH3 domain and a nine-residue proline-rich peptide selected from a large library of ligands prepa ...

    Solution structures of two Src homology 3 (SH3) domain-ligand complexes have been determined by nuclear magnetic resonance. Each complex consists of the SH3 domain and a nine-residue proline-rich peptide selected from a large library of ligands prepared by combinatorial synthesis. The bound ligands adopt a left-handed polyproline type II (PPII) helix, although the amino to carboxyl directionalities of their helices are opposite. The peptide orientation is determined by a salt bridge formed by the terminal arginine residues of the ligands and the conserved aspartate-99 of the SH3 domain. Residues at positions 3, 4, 6, and 7 of both peptides also intercalate into the ligand-binding site; however, the respective proline and nonproline residues show exchanged binding positions in the two complexes. These structural results led to a model for the interactions of SH3 domains with proline-rich peptides that can be used to predict critical residues in complexes of unknown structure. The model was used to identify correctly both the binding orientation and the contact and noncontact residues of a peptide derived from the nucleotide exchange factor Sos in association with the amino-terminal SH3 domain of the adaptor protein Grb2.


    Related Citations: 
    • Solution Structure of the SH3 Domain of Src and Identification of its Ligand-Binding Site
      Yu, H.,Rosen, M.K.,Shin, T.B.,Seidel-Dugan, C.,Brugge, J.S.,Schreiber, S.L.
      (1992) Science 258: 1665
    • Structural Basis for the Binding of Proline-Rich Peptides to SH3 Domains
      Yu, H.,Chen, J.K.,Feng, S.,Dalgarno, D.C.,Brauer, A.W.,Schreiber, S.L.
      (1994) Cell 76: 933


    Organizational Affiliation

    Howard Hughes Medical Institute, Department of Chemistry, Harvard University, Cambridge, MA 02138.




Macromolecules

Find similar proteins by: Sequence  |  Structure

Entity ID: 1
MoleculeChainsSequence LengthOrganismDetails
C-SRC TYROSINE KINASE SH3 DOMAIN
C
64Gallus gallusGene Names: SRC
EC: 2.7.10.2
Find proteins for P00523 (Gallus gallus)
Go to Gene View: SRC
Go to UniProtKB:  P00523
Entity ID: 2
MoleculeChainsSequence LengthOrganismDetails
PROLINE-RICH LIGAND PLR1 (AFAPPLPRR)
A
9N/AN/A
Protein Feature View is not available: No corresponding UniProt sequence found.
Experimental Data & Validation

Experimental Data

  • Method: SOLUTION NMR
  • Conformers Submitted: 
Software Package:
Software NamePurpose
X-PLORrefinement
X-PLORphasing
X-PLORmodel building

Structure Validation

View Full Validation Report or Ramachandran Plots



Entry History 

Deposition Data

Revision History 

  • Version 1.0: 1995-02-07
    Type: Initial release
  • Version 1.1: 2008-03-24
    Type: Version format compliance
  • Version 1.2: 2011-07-13
    Type: Version format compliance